All Competitors

Every biological foundation model, evaluated and ranked by the bio.rodeo team

Showing 2537 of 37 filtered models

  • FOCUS

    University of CambridgeDecember 23, 2025diffusionfoundation_modelgene_expression_imputation+8

    Generative foundation model that imputes genes and denoises spatial transcriptomics, conditioned on H&E histology, scRNA-seq, and spatial priors.

    Spatial omicsPathologySingle-cell
    4Openness
  • scMOBA

    Chinese Academy of Sciences +1 otherDecember 2, 2025cell_biologycell_type_annotationdata_integration+5

    Conversational single-cell and spatial multi-omics brain foundation model, with zero-shot cell annotation and disease prediction across species.

    Single-cellLanguage model
    5Openness
  • Carnegie Mellon UniversityNovember 27, 2025gene_expressiongenerativelanguage_model+4

    Spatial transcriptomics language model that reads tissue as spatial sentences to simulate cell profiles and run in silico perturbations.

    Spatial omicsSingle-cell
    53Openness
  • MIMYR

    2
    Carnegie Mellon UniversityNovember 24, 2025cell_biologycell_type_annotationdata_imputation+6

    Generative framework that reconstructs missing spatial transcriptomics regions by jointly predicting cell locations, cell types, and gene expression.

    Spatial omicsSingle-cell
    16Openness
  • SIGMMA

    1
    Helmholtz Munich +1 otherNovember 19, 2025contrastive_learningcross_modal_retrievalgene_expression_prediction+7

    Multi-modal contrastive model that aligns H&E histopathology with spatial transcriptomics across tissue scales to predict gene expression from images.

    PathologySpatial omics
    20Openness
  • SHEST

    1
    Samsung Advanced Institute for Health Sciences and Technology +2 othersNovember 19, 2025cell_type_annotationgene_expressionhistology+5

    Histopathology model that predicts single-cell type composition and reconstructs spatial gene expression from H&E slides, with no molecular assay.

    PathologySpatial omics
    16Openness
  • University of PennsylvaniaOctober 1, 2025batch_integrationcell_type_annotationfoundation_model+5

    Kidney-specialized single-cell foundation model trained across four mammalian species for zero-shot cell-type annotation and batch integration.

    Single-cellSpatial omics
    22Openness
  • ETH ZurichSeptember 23, 2025cancerdeep_setsgene_expression_prediction+4

    Predicts virtual single-cell spatial transcriptomics from H&E histology using frozen pathology foundation models and spot-level supervision.

    PathologySpatial omics
    58Openness
  • Central South UniversityAugust 11, 2025foundation_modelgene_expression_predictionhistology+6

    Histology vision transformer with 80M parameters that predicts spatial gene expression from H&E tissue images and transfers to tumor detection.

    PathologySpatial omics
    59Openness
  • University of Zurich +1 otherMarch 3, 2025conditional_generationdiffusiongenerative+3

    Patch-based 3D diffusion model that generates teravoxel-scale virtual mouse brain volumes conditioned on spatially resolved gene expression.

    Spatial omicsImaging
    78Openness
  • SpatialEx

    38
    Jilin University +1 otherFebruary 23, 2025contrastive_learningfoundation_modelgene_expression_prediction+6

    Histology-anchored framework pairing an H&E foundation model with a cellular hypergraph to predict single-cell multi-omics from tissue images.

    Spatial omicsPathology
    57Openness
  • CellPLM

    10497
    OmicsMLMay 1, 2024cell_biologyfoundation_modellanguage_model+1

    Single-cell foundation model that treats cells as tokens and tissues as sentences, encoding cell-cell relationships across 85M parameters.

    Single-cell
    50Openness
  • Nicheformer

    167144945
    Helmholtz Munich +1 otherApril 17, 2024foundation_modelspatial_transcriptomicstranscriptomics+1

    Transformer foundation model pretrained on 110M single-cell and spatial transcriptomics profiles, transferring spatial context to dissociated cells.

    Single-cell
    87Openness